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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtcctgttgatgaattgaattctaaccatctttcaccttagactgattctgatttcaaggggttttgctgaatagcttatattctatattgcagTTTTGCTAATAACCTGGATTTATGTGGCCCGGTTACTGGGCACCCATGCCCTGGATCTCCCCCATTTTCTCCACCTCCCCCATTTGTCCCACCACCACCA

Basic information

species Vitis vinifera
transcript Vv18s0164g00070.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0164g00070.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA10G36280.1 (Glycine max), 3'ss of exon 6
gtgtcctgttgatgaattgaattctaaccatctttcaccttagactgattctgatttcaaggggttttgctgaatagcttatattctatattgcagTTTTGCTAATAACCTGGATTTATGTGGCCCGGTTACTGGGCACCCATGCCCTGGATCTCCCCCATTTTCTCCACCTCCCCCATTTGTCCCACCACCACCA
       |||  | | |  | || |    || | ||||     |||| |||||||||  |    ||||  | ||  |     ||||  |  | ||||||||| || ||| ||||| ||||||| || || ||||||||||| || || || ||||| ||||||||||| |||||||| |||||||| ||||| |||
-------gtttcttactgaacttttggttat-tgtcac-----actggttctgatttgtaaatttttttataaacggg----attcccttct-cagTTTTGCAAACAACATGGATCTATGTGGACCTGTCACTGGGCACCCTTGTCCAGGCTCTCCTCCATTTTCTCCTCCTCCCCCTTTTGTCCCTCCACCTCCA

upper sequence: Vv18s0164g00070.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G31320.1 (Glycine max), 3'ss of exon 6
gtgtcctgttgatgaattgaattctaaccatctttcaccttagactgattctgatttcaaggggttttgctgaat-agcttatattctatattgcagTTTTGCTAATAACCTGGATTTATGTGGCCCGGTTACTGGGCACCCATGCCCTGGATCTCCCCCATTTTCTCCACCTCCCCCATTTGTCCCACCACCACCA
       |||  | |  |||| | |     |  ||  ||    |  | |||||||||  |    |||| || ||| |||||   ||||      ||||||||| || ||| ||||| ||||||| || || ||||||||||| || || || ||||| ||||||||||| |||||||| |||||||| ||||| |||
-------gtttctta-ctgaactttg--tgttattgtccc---agcggttctgatttgtaaatttttttctaaatgagcttcccttct------cagTTTTGCAAACAACTTGGATCTATGTGGACCTGTCACTGGGCACCCTTGTCCAGGCTCTCCTCCATTTTCTCCTCCTCCCCCTTTTGTCCCTCCACCTCCA

upper sequence: Vv18s0164g00070.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA02G08360.1 (Glycine max), 3'ss of exon 4
gtgtcctgttgatgaattgaattctaaccatctttcaccttagactgattctgatttcaaggggttttgctgaatagcttatattctatattgcagTTTTGCTAATAACCTGGATTTATGTGGCCCGGTTACTGGGCACCCATGCCCTGGATCTCCCCCATTTTCTCCACCTCCCCCATTTGTCCCACCACCACCA
       |||  |   |    ||  |   ||  ||   | |  | || |||||| ||  |     ||| |||||| |  |    |     ||||||||||   || ||| ||||  |||||||||| || |||||||| || || || || ||||| ||||||||||| |||||||| |||||||||||| | |||
-------gttttttgctcagctttgagatattcttg--catgcagtggttctgacttgcaaacaattt-ctgaatggactgcccttc---ttgcagTTTTAACAACAACTTGGACCTATGTGGCCCAGTCACTGGGCATCCTTGTCCCGGGTCTCCTCCATTTTCTCCTCCTCCCCCTTTTGTCCCACCATCCCCA

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|71873068|gb|DT022123.1|DT022123
EST:     TCAGGAGTGGTTCCAGACAATGGCTCTTTTTCATTATTTACCCCCATCAG                         TTTTGCTAATAACCTGGATTTATGTGGCCCGGTTACTGGGCACCCATGCCC
genomic: TCAGGAGTGGTTCCAGACAATGGCTCTTTTTCATTATTTACCCCCATCAGgtgtcctgtt ... tatattgcagTTTTGCTAATAACCTGGATTTATGTGGCCCGGTTACTGGGCACCCATGCCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agactgattctgatttcaaggggttttgctgaatagcttatattctatattgcagTTTTGCTAATAACCTGGATTTATGTGGCCCGGTTACTGGGCACCCATGCCCTGGATCTCCCCCATTTTCTCCACCTCCCCCATTTGTCCCACCACCACCA
       ttctgat  putative branch site (score: 3)
                                     ttatattctatatt  TA-rich tract